(Q35751638)

10 August 2017

title

Parallel evolution of conserved non-coding elements that target a common set of developmental regulatory genes from worms to humans (English)

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10 August 2017

4

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10 August 2017

5

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10 August 2017

Tanya Vavouri

1

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Klaudia Walter

object named as

Klaudia Walter

series ordinal

2

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author name string

Walter R Gilks

series ordinal

3

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10 August 2017

publication date

1 January 2007

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10 August 2017

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10 August 2017

volume

8

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10 August 2017

issue

2

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10 August 2017

page(s)

R15

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https://scigraph.springernature.com/pub.10.1186/gb-2007-8-2-r15

10 August 2017

exact match

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cites work

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Fine scale structural variants distinguish the genomes of Drosophila melanogaster and D. pseudoobscura.

2 October 2017

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Close sequence comparisons are sufficient to identify human cis-regulatory elements.

2 October 2017

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A distal enhancer and an ultraconserved exon are derived from a novel retroposon

2 October 2017

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2 October 2017

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2 October 2017

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2 October 2017

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Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

2 October 2017

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Ultraconserved elements in insect genomes: a highly conserved intronic sequence implicated in the control of homothorax mRNA splicing

2 October 2017

1 reference

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Conserved non-genic sequences - an unexpected feature of mammalian genomes

2 October 2017

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Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution

2 October 2017

1 reference

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Highly conserved non-coding sequences are associated with vertebrate development

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Arrays of ultraconserved non-coding regions span the loci of key developmental genes in vertebrate genomes

2 October 2017

1 reference

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Inparanoid: a comprehensive database of eukaryotic orthologs

2 October 2017

1 reference

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WormBase: a comprehensive data resource for Caenorhabditis biology and genomics

2 October 2017

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2 October 2017

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Whole-genome analysis of temporal gene expression during foregut development

2 October 2017

1 reference

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Weeder Web: discovery of transcription factor binding sites in a set of sequences from co-regulated genes

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Caenorhabditis phylogeny predicts convergence of hermaphroditism and extensive intron loss

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

WebLogo: A Sequence Logo Generator

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Comparative genomics at the vertebrate extremes

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Ultraconserved Elements in the Human Genome

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

2 October 2017

The microRNA Registry

1 reference

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The genome sequence of Caenorhabditis briggsae: a platform for comparative genomics

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Scanning Human Gene Deserts for Long-Range Enhancers

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Systematic functional analysis of the Caenorhabditis elegans genome using RNAi

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Human-mouse alignments with BLASTZ

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Rfam: an RNA family database

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Whole-Genome Shotgun Assembly and Analysis of the Genome of Fugu rubripes

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Fourfold faster rate of genome rearrangement in nematodes than in Drosophila

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

An insect molecular clock dates the origin of the insects and accords with palaeontological and biogeographic landmarks

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Regulation of organogenesis by the Caenorhabditis elegans FoxA protein PHA-4.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Initial sequencing and analysis of the human genome

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

A greedy algorithm for aligning DNA sequences

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Gene ontology: tool for the unification of biology

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Evidence for stabilizing selection in a eukaryotic enhancer element.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Genome sequence of the nematode C. elegans: a platform for investigating biology

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Crystallographic structure of the T domain-DNA complex of the Brachyury transcription factor

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

The DNA-binding specificity of the hepatocyte nuclear factor 3/forkhead domain is influenced by amino-acid residues adjacent to the recognition helix

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

The degree of variation in DNA sequence recognition among four Drosophila homeotic proteins.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Shuffling of cis-regulatory elements is a pervasive feature of the vertebrate lineage

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Ancient duplicated conserved noncoding elements in vertebrates: a genomic and functional analysis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

A functional survey of the enhancer activity of conserved non-coding sequences from vertebrate Iroquois cluster gene deserts.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

A compendium of Caenorhabditis elegans regulatory transcription factors: a resource for mapping transcription regulatory networks

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Highly conserved regulatory elements around the SHH gene may contribute to the maintenance of conserved synteny across human chromosome 7q36.3.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Functional analysis of the chicken delta1-crystallin enhancer activity in Drosophila reveals remarkable evolutionary conservation between chicken and fly.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Genomic cis-regulatory architecture and trans-acting regulators of a single interneuron-specific gene battery in C. elegans

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

An early pharyngeal muscle enhancer from the Caenorhabditis elegans ceh-22 gene is targeted by the Forkhead factor PHA-4.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

A regulatory cascade of three homeobox genes, ceh-10, ttx-3 and ceh-23, controls cell fate specification of a defined interneuron class in C. elegans

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Conservation, regulation, synteny, and introns in a large-scale C. briggsae-C. elegans genomic alignment

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Murine Hoxc-9 gene contains a structurally and functionally conserved enhancer.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Segmental expression of Hoxb-1 is controlled by a highly conserved autoregulatory loop dependent upon exd/pbx

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Striking nucleotide frequency pattern at the borders of highly conserved vertebrate non-coding sequences

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1852409

Defining a genomic radius for long-range enhancer action: duplicated conserved non-coding elements hold the key

15 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17274809

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/GB-2007-8-2-R15

1 reference

10 August 2017

1 reference

10 August 2017

1 reference